data_4RUP
#
_model_server_result.job_id            MLvdurXxVs018PAg5cO_Ug 
_model_server_result.datetime_utc      '2025-06-23 13:10:44' 
_model_server_result.server_version    0.9.12 
_model_server_result.query_name        ligand 
_model_server_result.source_id         pdb-bcif 
_model_server_result.entry_id          4rup 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":501}' 
#
_entry.id    4RUP 
#
_exptl.entry_id    4RUP 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              594.669 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(1R,3R,7E,17beta)-17-[(1R)-6,6,6-trifluoro-5-hydroxy-1-(4-hydroxy-4-methylpentyl)-5-(trifluoromethyl)hex-3-yn-1-yl]-9,1 0-secoestra-5,7-diene-1,3-diol' 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         120 
_cell.entry_id            4RUP 
_cell.length_a            65.741 
_cell.length_b            65.741 
_cell.length_c            263.851 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4RUP 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        179 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 65 2 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 10_665 -y+1,-x+1,-z+1/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 32.8705 56.933376 43.975167 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C31 H44 F6 O4' 
_chem_comp.formula_weight    594.669 
_chem_comp.id                H97 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(1R,3R,7E,17beta)-17-[(1R)-6,6,6-trifluoro-5-hydroxy-1-(4-hydroxy-4-methylpentyl)-5-(trifluoromethyl)hex-3-yn-1-yl]-9,1 0-secoestra-5,7-diene-1,3-diol' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     '1,25-dihydroxy-20R-21(3-trideuteromethyl-3-hydroxy-4,4,4-trideuterobutyl)-23-yne-26,27-hexafluoro-19-nor-cholecalcifero l (Gemini--0097)' 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
C10 C1 H97 sing 129 n n 
C2 C1 H97 sing 130 n n 
O1 C1 H97 sing 131 n n 
C1 H1 H97 sing 132 n n 
F1 C26 H97 sing 133 n n 
O1 HO1 H97 sing 134 n n 
C2 C3 H97 sing 135 n n 
C2 H2 H97 sing 136 n n 
C2 H2A H97 sing 137 n n 
C26 F2 H97 sing 138 n n 
C3 O2 H97 sing 139 n n 
O2 HO2 H97 sing 140 n n 
C4 C3 H97 sing 141 n n 
C3 H3 H97 sing 142 n n 
F3 C26 H97 sing 143 n n 
C24 O3 H97 sing 144 n n 
O3 HO3 H97 sing 145 n n 
C4 C5 H97 sing 146 n n 
C4 H4 H97 sing 147 n n 
C4 H4A H97 sing 148 n n 
F4 C25 H97 sing 149 n n 
O4 C30 H97 sing 150 n n 
O4 HO4 H97 sing 151 n n 
C10 C5 H97 sing 152 n n 
C5 C6 H97 doub 153 n n 
C25 F5 H97 sing 154 e n 
C6 C7 H97 sing 155 n n 
C6 H6 H97 sing 156 n n 
F6 C25 H97 sing 157 n n 
C8 C7 H97 doub 158 n n 
C7 H7 H97 sing 159 n n 
C9 C8 H97 sing 160 n n 
C8 C14 H97 sing 161 n n 
C11 C9 H97 sing 162 n n 
C9 H9 H97 sing 163 n n 
C9 H9A H97 sing 164 n n 
C10 H10 H97 sing 165 n n 
C10 H10A H97 sing 166 n n 
C11 C12 H97 sing 167 n n 
C11 H11 H97 sing 168 n n 
C11 H11A H97 sing 169 n n 
C12 C13 H97 sing 170 n n 
C12 H12 H97 sing 171 n n 
C12 H12A H97 sing 172 n n 
C18 C13 H97 sing 173 n n 
C13 C17 H97 sing 174 n n 
C13 C14 H97 sing 175 n n 
C14 C15 H97 sing 176 n n 
C14 H14 H97 sing 177 n n 
C16 C15 H97 sing 178 n n 
C15 H15 H97 sing 179 n n 
C15 H15A H97 sing 180 n n 
C17 C16 H97 sing 181 n n 
C16 H16 H97 sing 182 n n 
C16 H16A H97 sing 183 n n 
C20 C17 H97 sing 184 n n 
C17 H17 H97 sing 185 n n 
C18 H18 H97 sing 186 n n 
C18 H18A H97 sing 187 n n 
C18 H18B H97 sing 188 n n 
C21 C20 H97 sing 189 n n 
C20 C27 H97 sing 190 n n 
C20 H20 H97 sing 191 n n 
C22 C21 H97 sing 192 n n 
C21 H21 H97 sing 193 n n 
C21 H21A H97 sing 194 n n 
C23 C22 H97 trip 195 n n 
C24 C23 H97 sing 196 n n 
C26 C24 H97 sing 197 n n 
C25 C24 H97 sing 198 n n 
C27 C28 H97 sing 199 n n 
C27 H27 H97 sing 200 n n 
C27 H27A H97 sing 201 n n 
C28 C29 H97 sing 202 n n 
C28 H28 H97 sing 203 n n 
C28 H28A H97 sing 204 n n 
C29 C30 H97 sing 205 n n 
C29 H29 H97 sing 206 n n 
C29 H29A H97 sing 207 n n 
C30 C32 H97 sing 208 n n 
C30 C31 H97 sing 209 n n 
C31 H31 H97 sing 210 n n 
C31 H31A H97 sing 211 n n 
C31 H31B H97 sing 212 n n 
C32 H32 H97 sing 213 n n 
C32 H32A H97 sing 214 n n 
C32 H32B H97 sing 215 n n 
#
_atom_sites.entry_id                     4RUP 
_atom_sites.fract_transf_matrix[1][1]    0.015211 
_atom_sites.fract_transf_matrix[1][2]    0.008782 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017564 
_atom_sites.fract_transf_matrix[2][3]    0 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.00379 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
loop_
_pdbx_nonpoly_scheme.asym_id
_pdbx_nonpoly_scheme.entity_id
_pdbx_nonpoly_scheme.mon_id
_pdbx_nonpoly_scheme.pdb_strand_id
_pdbx_nonpoly_scheme.ndb_seq_num
_pdbx_nonpoly_scheme.pdb_seq_num
_pdbx_nonpoly_scheme.auth_seq_num
_pdbx_nonpoly_scheme.pdb_mon_id
_pdbx_nonpoly_scheme.auth_mon_id
_pdbx_nonpoly_scheme.pdb_ins_code
C 3 H97 A 1 501 1 H97 B72 . 
D 4 HOH A 1 601 1 HOH HOH . 
D 4 HOH A 2 602 2 HOH HOH . 
D 4 HOH A 3 603 3 HOH HOH . 
D 4 HOH A 4 604 4 HOH HOH . 
D 4 HOH A 5 605 5 HOH HOH . 
D 4 HOH A 6 606 6 HOH HOH . 
D 4 HOH A 7 607 9 HOH HOH . 
D 4 HOH A 8 608 10 HOH HOH . 
D 4 HOH A 9 609 11 HOH HOH . 
D 4 HOH A 10 610 13 HOH HOH . 
D 4 HOH A 11 611 14 HOH HOH . 
D 4 HOH A 12 612 15 HOH HOH . 
E 4 HOH B 1 801 7 HOH HOH . 
E 4 HOH B 2 802 8 HOH HOH . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 C C1 H97 . . . C 3 0.408 40.18 38.568 1 32.28 ? C1 H97 501 A 1 
HETATM 2 F F1 H97 . . . C 3 3.084 26.96 32.563 1 48.7 ? F1 H97 501 A 1 
HETATM 3 O O1 H97 . . . C 3 0.368 40.19 39.997 1 37.5 ? O1 H97 501 A 1 
HETATM 4 C C2 H97 . . . C 3 1.854 40.249 38.111 1 23.8 ? C2 H97 501 A 1 
HETATM 5 F F2 H97 . . . C 3 4.663 27.665 31.292 1 48.58 ? F2 H97 501 A 1 
HETATM 6 O O2 H97 . . . C 3 4.04 39.318 38.448 1 30.33 ? O2 H97 501 A 1 
HETATM 7 C C3 H97 . . . C 3 2.669 39.19 38.839 1 30.41 ? C3 H97 501 A 1 
HETATM 8 F F3 H97 . . . C 3 3.1 29.002 31.923 1 51.4 ? F3 H97 501 A 1 
HETATM 9 O O3 H97 . . . C 3 5.242 27.178 34.073 1 49.65 ? O3 H97 501 A 1 
HETATM 10 C C4 H97 . . . C 3 2.179 37.792 38.472 1 29.81 ? C4 H97 501 A 1 
HETATM 11 F F4 H97 . . . C 3 6.665 28.734 32.414 1 39.53 ? F4 H97 501 A 1 
HETATM 12 O O4 H97 . . . C 3 3.62 25.103 40.115 1 58.13 ? O4 H97 501 A 1 
HETATM 13 C C5 H97 . . . C 3 0.668 37.703 38.461 1 30.74 ? C5 H97 501 A 1 
HETATM 14 F F5 H97 . . . C 3 5.268 30.346 32.47 1 41.18 ? F5 H97 501 A 1 
HETATM 15 C C6 H97 . . . C 3 0.05 36.56 38.796 1 34.99 ? C6 H97 501 A 1 
HETATM 16 F F6 H97 . . . C 3 6.356 29.787 34.279 1 48.33 ? F6 H97 501 A 1 
HETATM 17 C C7 H97 . . . C 3 0.748 35.344 39.217 1 40.66 ? C7 H97 501 A 1 
HETATM 18 C C8 H97 . . . C 3 0.153 34.163 38.979 1 43.82 ? C8 H97 501 A 1 
HETATM 19 C C9 H97 . . . C 3 -1.186 34.123 38.274 1 44.1 ? C9 H97 501 A 1 
HETATM 20 C C10 H97 . . . C 3 -0.185 38.882 38.044 1 29.09 ? C10 H97 501 A 1 
HETATM 21 C C11 H97 . . . C 3 -1.155 33.077 37.155 1 44.3 ? C11 H97 501 A 1 
HETATM 22 C C12 H97 . . . C 3 -0.548 31.748 37.609 1 44.35 ? C12 H97 501 A 1 
HETATM 23 C C13 H97 . . . C 3 0.862 31.996 38.117 1 43.51 ? C13 H97 501 A 1 
HETATM 24 C C14 H97 . . . C 3 0.743 32.836 39.367 1 46.18 ? C14 H97 501 A 1 
HETATM 25 C C15 H97 . . . C 3 2.146 32.804 39.97 1 46.07 ? C15 H97 501 A 1 
HETATM 26 C C16 H97 . . . C 3 2.745 31.475 39.483 1 48.9 ? C16 H97 501 A 1 
HETATM 27 C C17 H97 . . . C 3 1.652 30.795 38.648 1 49.07 ? C17 H97 501 A 1 
HETATM 28 C C18 H97 . . . C 3 1.675 32.831 37.126 1 31.72 ? C18 H97 501 A 1 
HETATM 29 C C20 H97 . . . C 3 2.143 29.705 37.669 1 51.93 ? C20 H97 501 A 1 
HETATM 30 C C21 H97 . . . C 3 2.131 30.182 36.215 1 53.36 ? C21 H97 501 A 1 
HETATM 31 C C22 H97 . . . C 3 3.042 29.457 35.314 1 50.88 ? C22 H97 501 A 1 
HETATM 32 C C23 H97 . . . C 3 3.764 28.973 34.515 1 50.3 ? C23 H97 501 A 1 
HETATM 33 C C24 H97 . . . C 3 4.664 28.371 33.52 1 48.37 ? C24 H97 501 A 1 
HETATM 34 C C25 H97 . . . C 3 5.781 29.354 33.172 1 44.25 ? C25 H97 501 A 1 
HETATM 35 C C26 H97 . . . C 3 3.865 27.991 32.294 1 49.31 ? C26 H97 501 A 1 
HETATM 36 C C27 H97 . . . C 3 3.516 29.152 38.072 1 48.45 ? C27 H97 501 A 1 
HETATM 37 C C28 H97 . . . C 3 3.442 28.209 39.276 1 47.47 ? C28 H97 501 A 1 
HETATM 38 C C29 H97 . . . C 3 2.58 26.975 39.008 1 49.18 ? C29 H97 501 A 1 
HETATM 39 C C30 H97 . . . C 3 2.531 26.027 40.205 1 53.63 ? C30 H97 501 A 1 
HETATM 40 C C31 H97 . . . C 3 2.663 26.792 41.515 1 45.92 ? C31 H97 501 A 1 
HETATM 41 C C32 H97 . . . C 3 1.24 25.221 40.188 1 59.44 ? C32 H97 501 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           5 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           245 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           41 
#